{"id":"https://openalex.org/W3207511853","doi":"https://doi.org/10.1186/s12859-021-04248-8","title":"Context-aware multi-token concept recognition of biological entities","display_name":"Context-aware multi-token concept recognition of biological entities","publication_year":2021,"publication_date":"2021-10-01","ids":{"openalex":"https://openalex.org/W3207511853","doi":"https://doi.org/10.1186/s12859-021-04248-8","mag":"3207511853","pmid":"https://pubmed.ncbi.nlm.nih.gov/34674631"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-021-04248-8","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-021-04248-8","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-021-04248-8","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-021-04248-8","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100641636","display_name":"Kwangmin Kim","orcid":"https://orcid.org/0000-0003-1037-8827"},"institutions":[{"id":"https://openalex.org/I157485424","display_name":"Korea Advanced Institute of Science and Technology","ror":"https://ror.org/05apxxy63","country_code":"KR","type":"education","lineage":["https://openalex.org/I157485424"]},{"id":"https://openalex.org/I4210101891","display_name":"Korea Institute of Brain Science","ror":"https://ror.org/017stnw60","country_code":"KR","type":"facility","lineage":["https://openalex.org/I4210101891"]}],"countries":["KR"],"is_corresponding":true,"raw_author_name":"Kwangmin Kim","raw_affiliation_strings":["Department of Bio and Brain Engineering, Korea Advanced Institute of Science and Technology, Daejeon, South Korea"],"affiliations":[{"raw_affiliation_string":"Department of Bio and Brain Engineering, Korea Advanced Institute of Science and Technology, Daejeon, South Korea","institution_ids":["https://openalex.org/I4210101891","https://openalex.org/I157485424"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5037879375","display_name":"Doheon Lee","orcid":"https://orcid.org/0000-0001-9070-4316"},"institutions":[{"id":"https://openalex.org/I4210101891","display_name":"Korea Institute of Brain Science","ror":"https://ror.org/017stnw60","country_code":"KR","type":"facility","lineage":["https://openalex.org/I4210101891"]},{"id":"https://openalex.org/I157485424","display_name":"Korea Advanced Institute of Science and Technology","ror":"https://ror.org/05apxxy63","country_code":"KR","type":"education","lineage":["https://openalex.org/I157485424"]}],"countries":["KR"],"is_corresponding":false,"raw_author_name":"Doheon Lee","raw_affiliation_strings":["Bio-Synergy Research Center, Daejeon, South Korea. dhlee@kaist.ac.kr","Department of Bio and Brain Engineering, Korea Advanced Institute of Science and Technology, Daejeon, South Korea. dhlee@kaist.ac.kr","Department of Bio and Brain Engineering, Korea Advanced Institute of Science and Technology, Daejeon, South Korea"],"affiliations":[{"raw_affiliation_string":"Bio-Synergy Research Center, Daejeon, South Korea. dhlee@kaist.ac.kr","institution_ids":[]},{"raw_affiliation_string":"Department of Bio and Brain Engineering, Korea Advanced Institute of Science and Technology, Daejeon, South Korea. dhlee@kaist.ac.kr","institution_ids":[]},{"raw_affiliation_string":"Department of Bio and Brain Engineering, Korea Advanced Institute of Science and Technology, Daejeon, South Korea","institution_ids":["https://openalex.org/I4210101891","https://openalex.org/I157485424"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5100641636"],"corresponding_institution_ids":["https://openalex.org/I157485424","https://openalex.org/I4210101891"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":0.1623,"has_fulltext":true,"cited_by_count":3,"citation_normalized_percentile":{"value":0.49890232,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"22","issue":"S11","first_page":"337","last_page":"337"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9997000098228455,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9997000098228455,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10028","display_name":"Topic Modeling","score":0.9943000078201294,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9908999800682068,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/security-token","display_name":"Security token","score":0.7227902412414551},{"id":"https://openalex.org/keywords/context","display_name":"Context (archaeology)","score":0.7000666260719299},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6221791505813599},{"id":"https://openalex.org/keywords/dna-microarray","display_name":"DNA microarray","score":0.5756292343139648},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.41642138361930847},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.3565835952758789},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.29391801357269287},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.1417967975139618},{"id":"https://openalex.org/keywords/computer-security","display_name":"Computer security","score":0.12260648608207703},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.09660214185714722}],"concepts":[{"id":"https://openalex.org/C48145219","wikidata":"https://www.wikidata.org/wiki/Q1335365","display_name":"Security token","level":2,"score":0.7227902412414551},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.7000666260719299},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6221791505813599},{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.5756292343139648},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.41642138361930847},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.3565835952758789},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.29391801357269287},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.1417967975139618},{"id":"https://openalex.org/C38652104","wikidata":"https://www.wikidata.org/wiki/Q3510521","display_name":"Computer security","level":1,"score":0.12260648608207703},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.09660214185714722},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.0},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D009323","descriptor_name":"Natural Language Processing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009323","descriptor_name":"Natural Language Processing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009323","descriptor_name":"Natural Language Processing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009323","descriptor_name":"Natural Language Processing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011642","descriptor_name":"Publications","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011642","descriptor_name":"Publications","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011642","descriptor_name":"Publications","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011642","descriptor_name":"Publications","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":5,"locations":[{"id":"doi:10.1186/s12859-021-04248-8","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-021-04248-8","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-021-04248-8","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:34674631","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/34674631","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:doaj.org/article:7b33a036a67d40ceb0fe6f680bcc8a5c","is_oa":true,"landing_page_url":"https://doaj.org/article/7b33a036a67d40ceb0fe6f680bcc8a5c","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 22, Iss S11, Pp 1-10 (2021)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:7431278","is_oa":true,"landing_page_url":"http://europepmc.org/pmc/articles/PMC8529713","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:8529713","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8529713","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s12859-021-04248-8","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-021-04248-8","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-021-04248-8","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.699999988079071,"id":"https://metadata.un.org/sdg/4","display_name":"Quality Education"}],"awards":[{"id":"https://openalex.org/G1296185074","display_name":null,"funder_award_id":"NRF-2012M3A9C4048758","funder_id":"https://openalex.org/F4320328359","funder_display_name":"Ministry of Science and ICT, South Korea"},{"id":"https://openalex.org/G342704958","display_name":null,"funder_award_id":"funded","funder_id":"https://openalex.org/F4320322120","funder_display_name":"National Research Foundation of Korea"},{"id":"https://openalex.org/G3494007552","display_name":null,"funder_award_id":"NRF-2012","funder_id":"https://openalex.org/F4320322120","funder_display_name":"National Research Foundation of Korea"},{"id":"https://openalex.org/G3804201162","display_name":null,"funder_award_id":"2012M3A9C4048758","funder_id":"https://openalex.org/F4320322120","funder_display_name":"National Research Foundation of Korea"},{"id":"https://openalex.org/G5423939921","display_name":null,"funder_award_id":"2012M3A9C","funder_id":"https://openalex.org/F4320322120","funder_display_name":"National Research Foundation of Korea"},{"id":"https://openalex.org/G7650184580","display_name":null,"funder_award_id":"NRF-2012M3A9C4048758","funder_id":"https://openalex.org/F4320322120","funder_display_name":"National Research Foundation of Korea"},{"id":"https://openalex.org/G8329138081","display_name":null,"funder_award_id":"2012M3A9C4048758","funder_id":"https://openalex.org/F4320328359","funder_display_name":"Ministry of Science and ICT, South Korea"},{"id":"https://openalex.org/G982292920","display_name":null,"funder_award_id":"NRF-20","funder_id":"https://openalex.org/F4320322120","funder_display_name":"National Research Foundation of Korea"}],"funders":[{"id":"https://openalex.org/F4320320671","display_name":"National Research Foundation","ror":"https://ror.org/05s0g1g46"},{"id":"https://openalex.org/F4320322120","display_name":"National Research Foundation of Korea","ror":"https://ror.org/013aysd81"},{"id":"https://openalex.org/F4320328359","display_name":"Ministry of Science and ICT, South Korea","ror":"https://ror.org/01wpjm123"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3207511853.pdf","grobid_xml":"https://content.openalex.org/works/W3207511853.grobid-xml"},"referenced_works_count":23,"referenced_works":["https://openalex.org/W2040298461","https://openalex.org/W2058490165","https://openalex.org/W2092269560","https://openalex.org/W2103017472","https://openalex.org/W2113142309","https://openalex.org/W2151819598","https://openalex.org/W2414378847","https://openalex.org/W2525778437","https://openalex.org/W2624892763","https://openalex.org/W2745665559","https://openalex.org/W2767891136","https://openalex.org/W2911448018","https://openalex.org/W2911489562","https://openalex.org/W2912469014","https://openalex.org/W2937845937","https://openalex.org/W2967690619","https://openalex.org/W2970641574","https://openalex.org/W2984147501","https://openalex.org/W2985777934","https://openalex.org/W3030645549","https://openalex.org/W3105093672","https://openalex.org/W6673536509","https://openalex.org/W6675471023"],"related_works":["https://openalex.org/W4388335561","https://openalex.org/W2970530566","https://openalex.org/W2967478618","https://openalex.org/W2997152889","https://openalex.org/W4385009901","https://openalex.org/W4385572700","https://openalex.org/W4307309205","https://openalex.org/W4288261899","https://openalex.org/W4285141722","https://openalex.org/W4387768015"],"abstract_inverted_index":{"We":[0],"expect":[1],"that":[2],"our":[3],"model":[4],"can":[5],"be":[6],"utilized":[7],"for":[8],"effective":[9],"concept":[10],"recognition":[11],"and":[12],"variety":[13],"of":[14],"natural":[15],"language":[16],"processing":[17],"tasks":[18],"on":[19],"bioinformatics.":[20]},"counts_by_year":[{"year":2022,"cited_by_count":2},{"year":2020,"cited_by_count":1}],"updated_date":"2026-03-20T23:20:44.827607","created_date":"2025-10-10T00:00:00"}
